##%%%%%%%%%%%%%%%%%% rsqA4SN5_script.R %%%%%%%%%%%%%%%%%%%%%
## Script to run makeRsqMat0.1 in batch mode

library(Matrix)
library(MASS) ## For ginv() - Moore penrose inverse
## library(DAAG)
##%%%%%%%% Set Working Directory %%%%%%%%%%%%

setwd("D:/RWORK")

##%%%%%%%%%% Read in function files %%%%%%%%%

source("D:\\Desco\\Splus\\readCSV.ssc")
source("D:\\Desco\\Splus\\dataCleanFuncs.ssc")
source("D:\\Desco\\Splus\\lagM.ssc")
source("D:\\Desco\\Splus\\rowColFuncs.ssc")
source("D:/Desco/Splus/makeNormUnif.ssc")

source("D:/RWORK/simOfDemingFUNC.R")

j2z=junk2zero

##%%%%%% Load simulation data from disk %%%%%%%

# load("insL2");load("t1L2");load("t2L2")
# load("insL3");load("t1L3");load("t2L3")
# load("insL4");load("t1L4");load("t2L4")
load("insL4S");load("t1L4S");load("t2L4S")
# load("insL7");load("t1L7");load("t2L7")
# load("insL7S");load("t1L7S");load("t2L7S")

##%%%%%%% Load in/out data sets previousely computed %%%%%%
load("Imat5");load("Imat2");load("Imat1");load("Imat.5")
load("Imat5Out");load("Imat2Out");load("Imat1Out");load("Imat.5Out")
load("Imat5.50Out");load("Imat2.50Out");load("Imat1.50Out");load("Imat.5.50Out")

##%%%%%%%%%%%% Run makeRsqMat %%%%%%%%%%%%%%%%%%%%%%%

## L4S N=5000
rsqA4St1N5=makeRsqMatNcvAL(t1L4S,insL4S,Imat5[,1:200],Imat5Out[,1:200],Imat5.50Out[,1:200])
save(rsqA4St1N5,file="rsqA4St1N5")  # Run 12PM 1-22

rsqA4St2N5=makeRsqMatNcvAL(t2L4S,insL4S,Imat5[,1:200],Imat5Out[,1:200],Imat5.50Out[,1:200])
save(rsqA4St2N5,file="rsqA4St2N5") # Run 12PM 1-22




q()
